Desktop Menus

From: jprocter Date: Fri, 11 Jan 2008 13:54:15 +0000 (+0000) Subject: desktop tools menu updated X-Git-Tag: Release_2_4~155 X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;ds=sidebyside;h=1328521a8b2c123a4b4bc4d85d41738561bf4c2d;p=jalview.git desktop tools menu updated --- diff --git a/help/html/menus/desktopMenu.html b/help/html/menus/desktopMenu.html index c7d2656..40cfff8 100755 --- a/help/html/menus/desktopMenu.html +++ b/help/html/menus/desktopMenu.html @@ -1,75 +1,84 @@ - - -Desktop Menus - - - -

Desktop Menus

File -
- Input Alignment from (See more on file formats) -
  - File (Control O)
    - open file(s) on your local file system
  - URL
    - open a file from a website. The URL MUST start with http://
  - Textbox
    - copy and paste an alignment into a text window
  -
- Fetch Sequence
  - Shows a dialog window in which you can select known ids from - Uniprot, EMBL, EMBLCDS or PDB database using Web Services provided by - the European Bioinformatics Institute.
- Save Project
  - Saves all currently open alignment windows with their current - view settings and any associated trees, as a Jalview Archive (which has a - .jar extension).
- Load Project
  - Loads Jalview archives only.
- Quit
  - Close Jalview.
  - Note - any annotation you have made on alignments will be lost - unless you Save your work before quitting.
  -
-
Tools -
- Preferences
  - Change the default visual settings for opening new alignment - windows.
  -
-
Help -
- About
  - Displays the version and creation date of the application, as - well as acknowledgements and a citation reference.
- Documentation
  - Displays help files as a browseable, searchable set of pages - with a table of contents.
  -
-
Window
- Each time a new window is added to the Jalview Desktop a - corresponding menu item will be added to the "Window" menu - that will bring the window to the top of the pile when it is selected. -
-
Close All
- Close all alignment and analysis windows.
Note: This will erase all alignments from memory, and cannot be undone!
-
Raise Associated Windows
- Bring all windows associated with the current alignment to the top of the pile. -
-
Minimise Associated Windows
- Hide all windows related to the current alignment behind icons on the Jalview Desktop. -
-

- - + + +Desktop Menus + + + +

Desktop Menus

File +
- Input Alignment from (See more on file formats) +
  - File (Control O)
    + open file(s) on your local file system
  - URL
    + open a file from a website. The URL MUST start with http://
  - Textbox
    + copy and paste an alignment into a text window
  +
- Fetch Sequence
  + Shows a dialog window in which you can select known ids from + Uniprot, EMBL, EMBLCDS or PDB database using Web Services provided by + the European Bioinformatics Institute.
- Save Project
  + Saves all currently open alignment windows with their current + view settings and any associated trees, as a Jalview Archive (which has a + .jar extension).
- Load Project
  + Loads Jalview archives only.
- Quit
  + Close Jalview.
  + Note - any annotation you have made on alignments will be lost + unless you Save your work before quitting.
  +
+
Tools +
- Preferences
  + Change the default visual settings for opening new alignment + windows.
- Show Memory Usage
  + When ticked, the currently available memory will be displayed in the + bottom right of the desktop background area.
  + See the help on jalview memory settings for more information.
- Collect Garbage
  + Selecting this will initiate the Java Virtual Machine garbage collector, which might help free up some memory... perhaps. +
- Groovy Console... (only available if groovy is on the classpath)
  + Open's the Groovy Console for interactive scripting.
+
Help +
- About
  + Displays the version and creation date of the application, as + well as acknowledgements and a citation reference.
- Documentation
  + Displays help files as a browseable, searchable set of pages + with a table of contents.
  +
+
Window
+ Each time a new window is added to the Jalview Desktop a + corresponding menu item will be added to the "Window" menu + that will bring the window to the top of the pile when it is selected. +
+
Close All
+ Close all alignment and analysis windows.
Note: This will erase all alignments from memory, and cannot be undone!
+
Raise Associated Windows
+ Bring all windows associated with the current alignment to the top of the pile. +
+
Minimise Associated Windows
+ Hide all windows related to the current alignment behind icons on the Jalview Desktop. +
+

+ +